0.014145
0.008167
0.000000
0.000000
0.016333
0.000000
0.000000
0.000000
0.009640
0.00000
0.00000
0.00000
Cuff, M.E.
Skarina, T.
Onopriyenko, O.
Edwards, A.
Savchenko, A.
Joachimiak, A.
Midwest Center for Structural Genomics (MCSG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
70.696
70.696
103.736
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
non-polymer
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C5 H11 N O2 Se
196.106
n
SELENOMETHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
O4 S -2
96.063
SULFATE ION
non-polymer
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
TO BE PUBLISHED
0353
Structure of a HTH XRE-family like protein from Agrobacterium tumefaciens.
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
CCD
2006-02-05
ADSC QUANTUM 315
SAGITALLY FOCUSED Si(111)
MAD
M
x-ray
1
0.97948
1.0
0.97935
1.0
19-ID
APS
0.97948, 0.97935
SYNCHROTRON
APS BEAMLINE 19-ID
10927.922
Uncharacterized protein Atu1735
1
man
polymer
96.063
SULFATE ION
6
syn
non-polymer
92.094
GLYCEROL
2
syn
non-polymer
18.015
water
68
nat
water
AGR_C_3184p
no
yes
GH(MSE)TDEDSEANALADPDNPPLSAEQLASAPR(MSE)PRIKIIRRALKLTQEEFSARYHIPLGTLRDWEQGRSEPDQ
PARAYLKIIAVDPEGTAAALRKGATGS
GHMTDEDSEANALADPDNPPLSAEQLASAPRMPRIKIIRRALKLTQEEFSARYHIPLGTLRDWEQGRSEPDQPARAYLKI
IAVDPEGTAAALRKGATGS
A
APC6027
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Agrobacterium
Agrobacterium tumefaciens
C58
Escherichia
sample
33970
Atu1735, AGR_C_3184
176299
Agrobacterium tumefaciens str.
562
Escherichia coli
modified BL21(DE3)
Plasmid
modified p11
1
3.42
64.05
VAPOR DIFFUSION, HANGING DROP
5.6
2M Ammonium sulfate, 0.2M K/Na tartrate, 0.1M Na citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
291
Midwest Center for Structural Genomics
MCSG
PSI, Protein Structure Initiative
repository
Initial release
Version format compliance
Advisory
Derived calculations
Source and taxonomy
Version format compliance
1
0
2007-05-29
1
1
2008-05-01
1
2
2011-07-13
BIOMOLECULE: 1
THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT
WHICH CONSISTS OF 1 CHAIN(S). AUTHORS STATE THAT THE
BIOLOGICAL UNIT OF THIS PROTEIN IS UNKNOWN. THE POTENTIAL
TETRAMERIC ASSEMBLY SHOWN IN REMARK 350 IS PREDICTED BY
THE ANALYSIS OF PROTEIN INTERFACES BASED ON THIS CRYSTAL
STRUCTURE.
Y
RCSB
Y
RCSB
2007-04-30
REL
REL
SO4
SULFATE ION
GOL
GLYCEROL
HOH
water
SO4
1
2
SO4
SO4
101
A
SO4
2
2
SO4
SO4
102
A
SO4
3
2
SO4
SO4
103
A
SO4
4
2
SO4
SO4
104
A
SO4
6
2
SO4
SO4
106
A
SO4
7
2
SO4
SO4
107
A
GOL
1
3
GOL
GOL
201
A
GOL
1
3
GOL
GOL
202
A
HOH
1
4
HOH
HOH
203
A
HOH
2
4
HOH
HOH
204
A
HOH
3
4
HOH
HOH
205
A
HOH
4
4
HOH
HOH
206
A
HOH
5
4
HOH
HOH
207
A
HOH
6
4
HOH
HOH
208
A
HOH
7
4
HOH
HOH
209
A
HOH
8
4
HOH
HOH
210
A
HOH
9
4
HOH
HOH
211
A
HOH
10
4
HOH
HOH
212
A
HOH
11
4
HOH
HOH
213
A
HOH
12
4
HOH
HOH
214
A
HOH
13
4
HOH
HOH
215
A
HOH
14
4
HOH
HOH
216
A
HOH
15
4
HOH
HOH
217
A
HOH
16
4
HOH
HOH
218
A
HOH
17
4
HOH
HOH
219
A
HOH
18
4
HOH
HOH
220
A
HOH
19
4
HOH
HOH
221
A
HOH
20
4
HOH
HOH
222
A
HOH
21
4
HOH
HOH
223
A
HOH
22
4
HOH
HOH
224
A
HOH
23
4
HOH
HOH
225
A
HOH
24
4
HOH
HOH
226
A
HOH
25
4
HOH
HOH
227
A
HOH
26
4
HOH
HOH
228
A
HOH
27
4
HOH
HOH
229
A
HOH
28
4
HOH
HOH
230
A
HOH
29
4
HOH
HOH
231
A
HOH
30
4
HOH
HOH
232
A
HOH
31
4
HOH
HOH
233
A
HOH
32
4
HOH
HOH
234
A
HOH
33
4
HOH
HOH
235
A
HOH
34
4
HOH
HOH
236
A
HOH
35
4
HOH
HOH
237
A
HOH
36
4
HOH
HOH
238
A
HOH
37
4
HOH
HOH
239
A
HOH
38
4
HOH
HOH
240
A
HOH
39
4
HOH
HOH
241
A
HOH
40
4
HOH
HOH
242
A
HOH
41
4
HOH
HOH
243
A
HOH
42
4
HOH
HOH
244
A
HOH
43
4
HOH
HOH
245
A
HOH
44
4
HOH
HOH
246
A
HOH
45
4
HOH
HOH
247
A
HOH
46
4
HOH
HOH
248
A
HOH
47
4
HOH
HOH
249
A
HOH
49
4
HOH
HOH
250
A
HOH
50
4
HOH
HOH
251
A
HOH
52
4
HOH
HOH
252
A
HOH
53
4
HOH
HOH
253
A
HOH
54
4
HOH
HOH
254
A
HOH
55
4
HOH
HOH
255
A
HOH
56
4
HOH
HOH
256
A
HOH
57
4
HOH
HOH
257
A
HOH
58
4
HOH
HOH
258
A
HOH
59
4
HOH
HOH
259
A
HOH
63
4
HOH
HOH
260
A
HOH
68
4
HOH
HOH
261
A
HOH
69
4
HOH
HOH
262
A
HOH
75
4
HOH
HOH
263
A
HOH
76
4
HOH
HOH
264
A
HOH
77
4
HOH
HOH
265
A
HOH
78
4
HOH
HOH
266
A
HOH
84
4
HOH
HOH
267
A
HOH
86
4
HOH
HOH
268
A
HOH
87
4
HOH
HOH
269
A
HOH
88
4
HOH
HOH
270
A
n
1
-1
A
n
2
0
A
n
3
1
A
n
4
2
A
n
5
3
A
n
6
4
A
n
7
5
A
n
8
6
A
n
9
7
A
n
10
8
A
n
11
9
A
n
12
10
A
n
13
11
A
n
14
12
A
n
15
13
A
n
16
14
A
n
17
15
A
n
18
16
A
n
19
17
A
n
20
18
A
n
21
19
A
n
22
20
A
n
23
21
A
n
24
22
A
n
25
23
A
n
26
24
A
n
27
25
A
n
28
26
A
n
29
27
A
n
30
28
A
n
31
29
A
MSE
30
n
32
MSE
30
A
PRO
31
n
33
PRO
31
A
ARG
32
n
34
ARG
32
A
ILE
33
n
35
ILE
33
A
LYS
34
n
36
LYS
34
A
ILE
35
n
37
ILE
35
A
ILE
36
n
38
ILE
36
A
ARG
37
n
39
ARG
37
A
ARG
38
n
40
ARG
38
A
ALA
39
n
41
ALA
39
A
LEU
40
n
42
LEU
40
A
LYS
41
n
43
LYS
41
A
LEU
42
n
44
LEU
42
A
THR
43
n
45
THR
43
A
GLN
44
n
46
GLN
44
A
GLU
45
n
47
GLU
45
A
GLU
46
n
48
GLU
46
A
PHE
47
n
49
PHE
47
A
SER
48
n
50
SER
48
A
ALA
49
n
51
ALA
49
A
ARG
50
n
52
ARG
50
A
TYR
51
n
53
TYR
51
A
HIS
52
n
54
HIS
52
A
ILE
53
n
55
ILE
53
A
PRO
54
n
56
PRO
54
A
LEU
55
n
57
LEU
55
A
GLY
56
n
58
GLY
56
A
THR
57
n
59
THR
57
A
LEU
58
n
60
LEU
58
A
ARG
59
n
61
ARG
59
A
ASP
60
n
62
ASP
60
A
TRP
61
n
63
TRP
61
A
GLU
62
n
64
GLU
62
A
GLN
63
n
65
GLN
63
A
GLY
64
n
66
GLY
64
A
ARG
65
n
67
ARG
65
A
SER
66
n
68
SER
66
A
GLU
67
n
69
GLU
67
A
PRO
68
n
70
PRO
68
A
ASP
69
n
71
ASP
69
A
GLN
70
n
72
GLN
70
A
PRO
71
n
73
PRO
71
A
ALA
72
n
74
ALA
72
A
ARG
73
n
75
ARG
73
A
ALA
74
n
76
ALA
74
A
TYR
75
n
77
TYR
75
A
LEU
76
n
78
LEU
76
A
LYS
77
n
79
LYS
77
A
ILE
78
n
80
ILE
78
A
ILE
79
n
81
ILE
79
A
ALA
80
n
82
ALA
80
A
VAL
81
n
83
VAL
81
A
ASP
82
n
84
ASP
82
A
PRO
83
n
85
PRO
83
A
GLU
84
n
86
GLU
84
A
GLY
85
n
87
GLY
85
A
THR
86
n
88
THR
86
A
ALA
87
n
89
ALA
87
A
ALA
88
n
90
ALA
88
A
ALA
89
n
91
ALA
89
A
LEU
90
n
92
LEU
90
A
ARG
91
n
93
ARG
91
A
n
94
92
A
n
95
93
A
n
96
94
A
n
97
95
A
n
98
96
A
n
99
97
A
4.0654
1.6966
0.7968
4.0375
0.2281
5.0941
0.3751
-0.3671
-0.1045
0.3664
-0.0809
-0.2228
0.1751
0.1834
-0.2942
-0.2037
-0.0742
-0.0435
-0.4355
-0.0405
-0.4700
refined
44.6426
3.0189
11.9951
X-RAY DIFFRACTION
A
30
A
32
A
91
A
93
X-RAY DIFFRACTION
1
author_and_software_defined_assembly
PISA
4
tetrameric
software_defined_assembly
PQS
1
monomeric
10260
-285
12930
A
MSE
30
SELENOMETHIONINE
A
MSE
32
MET
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
4_655
-x+1,-y,z
crystal symmetry operation
70.6960000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
8_555
x-y,-y,-z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
11_655
-x+y+1,y,-z
crystal symmetry operation
70.6960000000
0.0000000000
0.0000000000
1
A
HOH
223
J
HOH
1
A
HOH
225
J
HOH
1
A
HOH
269
J
HOH
1
A
GLY
-1
A
GLY
1
1
Y
1
A
HIS
0
A
HIS
2
1
Y
1
A
MSE
1
A
MSE
3
1
Y
1
A
THR
2
A
THR
4
1
Y
1
A
ASP
3
A
ASP
5
1
Y
1
A
GLU
4
A
GLU
6
1
Y
1
A
ASP
5
A
ASP
7
1
Y
1
A
SER
6
A
SER
8
1
Y
1
A
GLU
7
A
GLU
9
1
Y
1
A
ALA
8
A
ALA
10
1
Y
1
A
ASN
9
A
ASN
11
1
Y
1
A
ALA
10
A
ALA
12
1
Y
1
A
LEU
11
A
LEU
13
1
Y
1
A
ALA
12
A
ALA
14
1
Y
1
A
ASP
13
A
ASP
15
1
Y
1
A
PRO
14
A
PRO
16
1
Y
1
A
ASP
15
A
ASP
17
1
Y
1
A
ASN
16
A
ASN
18
1
Y
1
A
PRO
17
A
PRO
19
1
Y
1
A
PRO
18
A
PRO
20
1
Y
1
A
LEU
19
A
LEU
21
1
Y
1
A
SER
20
A
SER
22
1
Y
1
A
ALA
21
A
ALA
23
1
Y
1
A
GLU
22
A
GLU
24
1
Y
1
A
GLN
23
A
GLN
25
1
Y
1
A
LEU
24
A
LEU
26
1
Y
1
A
ALA
25
A
ALA
27
1
Y
1
A
SER
26
A
SER
28
1
Y
1
A
ALA
27
A
ALA
29
1
Y
1
A
PRO
28
A
PRO
30
1
Y
1
A
ARG
29
A
ARG
31
1
Y
1
A
LYS
92
A
LYS
94
1
Y
1
A
GLY
93
A
GLY
95
1
Y
1
A
ALA
94
A
ALA
96
1
Y
1
A
THR
95
A
THR
97
1
Y
1
A
GLY
96
A
GLY
98
1
Y
1
A
SER
97
A
SER
99
1
Y
65.677
0.90
0.45
0.00
0.90
0.00
-1.35
0.952
0.930
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.24382
0.19607
0.19831
0.19831
2.00
35.35
509
10139
10139
4.8
97.53
5.095
0.075
RANDOM
LIKELY RESIDUAL
1
THROUGHOUT
0.00
-3
MAD
0.118
0.126
0.80
0.80
1.40
MAXIMUM LIKELIHOOD WITH PHASES
MASK
2.00
35.35
68
611
42
0
501
0.015
0.022
586
1.450
2.045
798
4.268
5.000
71
30.974
21.481
27
13.769
15.000
105
17.649
15.000
9
0.112
0.200
81
0.006
0.020
428
0.207
0.200
271
0.307
0.200
382
0.123
0.200
54
0.184
0.200
25
0.124
0.200
9
0.834
1.500
347
1.312
2.000
542
2.356
3.000
268
3.856
4.500
253
0.396
0.31
2.052
34
616
20
83.12
38.6
1.95
35.35
2PPX
10649
10649
0
-3
0.049
1
11.9
97.5
1.95
2.05
2
0.347
1
5.9
81.3
refinement
REFMAC
5.2.0019
data collection
SBC-Collect
data reduction
HKL-3000
data scaling
HKL-3000
phasing
HKL-3000
phasing
SHELXD
model building
SHELXE
phasing
MLPHARE
phasing
DM
phasing
SOLVE
phasing
RESOLVE
model building
ARP/wARP
phasing
CCP4
model building
O
model building
Coot
Uncharacterized protein Atu1735
Crystal structure of a HTH XRE-family like protein from Agrobacterium tumefaciens
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
4
N
N
potential tetramer
A
PRO
31
A
PRO
33
HELX_P
A
LEU
40
A
LEU
42
1
1
10
A
THR
43
A
THR
45
HELX_P
A
HIS
52
A
HIS
54
1
2
10
A
PRO
54
A
PRO
56
HELX_P
A
GLN
63
A
GLN
65
1
3
10
A
ASP
69
A
ASP
71
HELX_P
A
ASP
82
A
ASP
84
1
4
14
A
ASP
82
A
ASP
84
HELX_P
A
ARG
91
A
ARG
93
1
5
10
covale
1.340
A
MSE
30
A
C
MSE
32
1_555
A
PRO
31
A
N
PRO
33
1_555
STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Agrobacterium tumefaciens, HTH-motif, XRE-family, structural genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, UNKNOWN FUNCTION
Q8UEM2_AGRT5
UNP
1
1
Q8UEM2
MTDEDSEANALADPDNPPLSAEQLASAPRMPRIKIIRRALKLTQEEFSARYHIPLGTLRDWEQGRSEPDQPARAYLKIIA
VDPEGTAAALRKGAT
1
95
2PPX
1
95
Q8UEM2
A
1
3
97
1
CLONING ARTIFACT
GLY
-1
2PPX
A
Q8UEM2
UNP
1
1
CLONING ARTIFACT
HIS
0
2PPX
A
Q8UEM2
UNP
2
1
MET
MODIFIED RESIDUE
MSE
1
2PPX
A
Q8UEM2
UNP
1
3
1
MET
MODIFIED RESIDUE
MSE
30
2PPX
A
Q8UEM2
UNP
30
32
1
CLONING ARTIFACT
GLY
96
2PPX
A
Q8UEM2
UNP
98
1
CLONING ARTIFACT
SER
97
2PPX
A
Q8UEM2
UNP
99
BINDING SITE FOR RESIDUE SO4 A 101
Software
5
BINDING SITE FOR RESIDUE SO4 A 102
Software
4
BINDING SITE FOR RESIDUE SO4 A 103
Software
7
BINDING SITE FOR RESIDUE SO4 A 104
Software
6
BINDING SITE FOR RESIDUE SO4 A 106
Software
4
BINDING SITE FOR RESIDUE SO4 A 107
Software
1
BINDING SITE FOR RESIDUE GOL A 201
Software
2
BINDING SITE FOR RESIDUE GOL A 202
Software
6
A
ARG
37
A
ARG
39
5
1_555
A
ARG
38
A
ARG
40
5
1_555
A
LYS
41
A
LYS
43
5
10_665
A
HOH
228
J
HOH
5
1_555
A
HOH
247
J
HOH
5
1_555
A
GLU
45
A
GLU
47
4
8_555
A
ARG
59
A
ARG
61
4
8_555
A
ARG
65
A
ARG
67
4
1_555
A
HOH
205
J
HOH
4
1_555
A
SER
66
A
SER
68
7
1_555
A
GLU
67
A
GLU
69
7
1_555
A
ASP
69
A
ASP
71
7
11_655
A
ARG
73
A
ARG
75
7
11_655
A
HOH
211
J
HOH
7
11_655
A
HOH
217
J
HOH
7
1_555
A
HOH
242
J
HOH
7
11_655
A
HIS
52
A
HIS
54
6
4_655
A
GLN
70
A
GLN
72
6
1_555
A
ARG
73
A
ARG
75
6
1_555
A
HOH
215
J
HOH
6
1_555
A
HOH
257
J
HOH
6
1_555
A
HOH
260
J
HOH
6
1_555
A
LYS
34
A
LYS
36
4
1_555
A
ARG
38
A
ARG
40
4
1_555
A
HOH
252
J
HOH
4
1_555
A
HOH
261
J
HOH
4
1_555
A
ARG
50
A
ARG
52
1
1_555
A
ARG
50
A
ARG
52
2
1_555
A
ARG
91
A
ARG
93
2
1_555
A
ARG
32
A
ARG
34
6
1_555
A
HOH
212
J
HOH
6
1_555
A
HOH
256
J
HOH
6
1_555
A
HOH
257
J
HOH
6
1_555
A
HOH
265
J
HOH
6
1_555
A
HOH
266
J
HOH
6
1_555
181
P 64 2 2